Thanks so much for your response, Jason.
Unfortunately, I have a slightly different issue (I think). Now I do see the option in the Rules manager, for "Logged in to users" and "Not Logged in to users".
When I select Show Region, then the rule for logged into users (for the Welcome message), it works.
But when I select the rule for "not logged into users" (for the Login link), it doesn't stick.
For some reason, both regions say, <?php if(WA_Auth_RulePasses("Logged in to users")){ // Begin Show Region ?>
Is there possibly something wrong with my Extension??